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| author | minskim <minskim@pkgsrc.org> | 2004-12-01 04:01:09 +0000 |
|---|---|---|
| committer | minskim <minskim@pkgsrc.org> | 2004-12-01 04:01:09 +0000 |
| commit | 1d8c29b2b9e932a275729f506c5ded8f2885c068 (patch) | |
| tree | fbdf402073064d4caa45d5f747b25f389c9b3745 /biology | |
| parent | 5e89d5677a3d8d04d01d78e5c2b16996a59a4e28 (diff) | |
| download | pkgsrc-1d8c29b2b9e932a275729f506c5ded8f2885c068.tar.gz | |
Update hmmer to 2.3.2. Patch provided by David Price in PR pkg/28483.
While here, enable pkgviews installation.
Changes:
-:- hmmsearch intermittently failed on Swissprot searches, on some
platforms (reports on AMD/Linux; Mac OS/X). (#h25)
-:- hmmpfam memory allocation strategy did not guarantee RAMLIMIT,
and could explode to very large allocations when searching
with large sequences. (#h26)
-:- technical improvements in handing dsq's (digitized sequences);
"bug" has no visible effects, except when compiling on
different platforms. (#h27)
-:- typo fix in P7Forward() recursion; typo may have had minor
effect on calculated scores. (#h28)
-:- hmmalign now includes --outformat and --oneline option for
specifying different output alignment formats than the default
Stockholm.
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/hmmer/Makefile | 9 | ||||
| -rw-r--r-- | biology/hmmer/distinfo | 6 |
2 files changed, 8 insertions, 7 deletions
diff --git a/biology/hmmer/Makefile b/biology/hmmer/Makefile index 0205a9f3e31..04536081268 100644 --- a/biology/hmmer/Makefile +++ b/biology/hmmer/Makefile @@ -1,15 +1,16 @@ -# $NetBSD: Makefile,v 1.5 2004/08/16 02:47:49 ben Exp $ +# $NetBSD: Makefile,v 1.6 2004/12/01 04:01:09 minskim Exp $ # -DISTNAME= hmmer-2.3.1 +DISTNAME= hmmer-2.3.2 CATEGORIES= biology -MASTER_SITES= ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/2.3.1/ +MASTER_SITES= ftp://ftp.genetics.wustl.edu/pub/eddy/hmmer/2.3.2/ MAINTAINER= hdp@cs.nmsu.edu HOMEPAGE= http://hmmer.wustl.edu/ COMMENT= Implementation of profile HMM software for protein sequence analysis -WRKSRC= ${WRKDIR}/hmmer-2.3.1 +PKG_INSTALLATION_TYPES= overwrite pkgviews + USE_BUILDLINK3= yes GNU_CONFIGURE= yes diff --git a/biology/hmmer/distinfo b/biology/hmmer/distinfo index 0ea4ec8505f..7b0f7f43c6b 100644 --- a/biology/hmmer/distinfo +++ b/biology/hmmer/distinfo @@ -1,5 +1,5 @@ -$NetBSD: distinfo,v 1.3 2004/08/23 14:37:04 ben Exp $ +$NetBSD: distinfo,v 1.4 2004/12/01 04:01:09 minskim Exp $ -SHA1 (hmmer-2.3.1.tar.gz) = bf6a3ec56c24332d7e66d6ce8865de1d72dce01f -Size (hmmer-2.3.1.tar.gz) = 1023122 bytes +SHA1 (hmmer-2.3.2.tar.gz) = aa34cb97cbc43ff3bd92dd111ba5677298fe2d40 +Size (hmmer-2.3.2.tar.gz) = 1024933 bytes SHA1 (patch-aa) = e443df78be8036bb8e58567ae9e9f734f8b6ae99 |